TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3384c/vapC46:

update plot	correlation	link to info on gene
Rv3860/-	(cc=0.5503)	info on Rv3860/-
Rv3022A/PE29	(cc=0.4382)	info on Rv3022A/PE29
Rv3798/-	(cc=0.4171)	info on Rv3798/-
Rv0860/fadB	(cc=0.4168)	info on Rv0860/fadB
Rv1225c/-	(cc=0.4107)	info on Rv1225c/-
Rv2812/-	(cc=0.4059)	info on Rv2812/-
Rv1961/-	(cc=0.4032)	info on Rv1961/-
Rv1878/glnA3	(cc=0.3965)	info on Rv1878/glnA3
Rv1951c/-	(cc=0.3955)	info on Rv1951c/-
Rv2154c/ftsW	(cc=0.3867)	info on Rv2154c/ftsW

Correlation of Rv3384c/vapC46 with Rv3022A/PE29

Normalized LFCs for Rv3384c/vapC46:
(description and provenance of datasets)

	Rv3384c/vapC46	Rv3022A/PE29
Fe_supp_jason_reseq	-1.924	0.275
low_pH_jason_reseq	-0.848	-0.381
NO_jason_reseq	-0.606	-0.709
B6_jason_reseq	-1.495	-0.585
MHCII_jason_reseq	-2.384	-0.709
Isoniazid02	0.313	0.994
Rifampicin4	0.899	0.967
Ethambutol3	0.624	0.434
Meropenem3	0.648	0.291
Vancomycin16	0.881	0.594
Rv2680_day32	-2.671	-0.826
H37Rv_KO_MarP	0.667	0.165
hypoxia_3wks	-0.65	0.347
hypoxia_6wks	-2.334	-0.81
glycerol	-0.304	0.73
cholesterol	0.191	1.146
AJ	1.887	2.274
Bibs02	1.09	0.167
Bibs02c	-1.446	0.893
BL6	-1.546	0.569
BL6a	-0.822	0.641
BXD01	-1.54	0.898
BXD010	-0.817	0.456
BXD011	-0.937	0.286
BXD03	0.418	0.216
BXD04	-0.322	0.063
BXD05	0.529	0.775
BXD06	-0.246	0.593
BXD07	0.083	0.93
BXD08	-0.142	0.28
BXD09	0.206	0.383
CAST	-0.551	1.099
CCcont	-0.087	1.022
DS01	0.448	0.883
DS02	-0.4	0.745
DS04	-2.363	0.748
DS0c	-0.726	-0.019
GP01	0.377	0.72
GP02	0.404	0.311
GP0c	0.0	0.208
NOD	-1.704	0.919
NZO	1.098	-0.088
PWK	0.686	0.494
H37Rv_KO_CtpC	1.131	1.553
H37Rv_KO_CtpD	-0.276	1.287
H37Rv_KO_Rv1272	0.5	2.221
H37Rv_KO_SugABC	0.808	0.898
H37Rv_KO_MbtN	1.899	0.687
Trans05	-0.932	1.378
macrophage_unactivated	0.401	0.767
IL1	-0.656	0.039
Rapamycin	0.083	0.264
Tcell	-0.85	0.525
GMCSF	0.634	1.333
IFNab	0.23	0.768
IFNg	0.802	0.083
IFNg_GMCSF1	-0.053	0.289
Rv1432_day32	-0.065	0.85
Rv1565c_day32	-0.599	2.139
secA2_input	-0.728	0.182
delta_Rv3594	0.665	0.34
delta_Rv3717	0.437	0.145
delta_Rv3811	1.132	0.427
delta_Rv0954	-0.222	-0.225
PonA1	-1.07	0.516
EccD1_KO	0.77	0.947
EspI_KO	0.896	1.178
PE35_KO	0.335	0.84
PPE68_KO	0.086	0.579
glycerol2	-1.77	-1.302
lignocerate	0.223	-0.961
oleate	-3.424	-1.032
phosphatidylcholine	-0.95	-0.819
acetate	0.261	-1.248
glucAc	0.216	-0.722
Rv0950ko	-0.929	0.555
Rv1096ko	-1.285	-0.347
Rv3684ko	-1.205	-0.354
delta_otsA_trehalose	-1.541	-1.531